| ProDy 2.0: increased scale and scope after 10 years of protein dynamics modelling with Python S Zhang, JM Krieger, Y Zhang, C Kaya, B Kaynak, K Mikulska-Ruminska, ... Bioinformatics 37 (20), 3657-3659, 2021 | 138 | 2021 |
| Intrinsic dynamics is evolutionarily optimized to enable allosteric behavior Y Zhang, P Doruker, B Kaynak, S Zhang, J Krieger, H Li, I Bahar Current opinion in structural biology 62, 14-21, 2020 | 102 | 2020 |
| Impact of South African 501. V2 variant on SARS-CoV-2 spike infectivity and neutralization: a structure-based computational assessment MH Cheng, JM Krieger, B Kaynak, M Arditi, I Bahar BioRxiv, 2021.01. 10.426143, 2021 | 73 | 2021 |
| Essential site scanning analysis: A new approach for detecting sites that modulate the dispersion of protein global motions BT Kaynak, I Bahar, P Doruker Computational and Structural Biotechnology Journal 18, 1577-1586, 2020 | 46 | 2020 |
| Impact of new variants on SARS-CoV-2 infectivity and neutralization: A molecular assessment of the alterations in the spike-host protein interactions MH Cheng, JM Krieger, A Banerjee, Y Xiang, B Kaynak, Y Shi, M Arditi, ... Iscience 25 (3), 2022 | 41* | 2022 |
| Sampling of protein conformational space using hybrid simulations: A critical assessment of recent methods BT Kaynak, JM Krieger, B Dudas, ZL Dahmani, MGS Costa, E Balog, ... Frontiers in molecular biosciences 9, 832847, 2022 | 24 | 2022 |
| State-dependent sequential allostery exhibited by chaperonin TRiC/CCT revealed by network analysis of Cryo-EM maps Y Zhang, J Krieger, K Mikulska-Ruminska, B Kaynak, COS Sorzano, ... Progress in biophysics and molecular biology 160, 104-120, 2021 | 22 | 2021 |
| Precise druggability of the PTH type 1 receptor I Sutkeviciute, JY Lee, AD White, CS Maria, KA Peña, S Savransky, ... Nature chemical biology 18 (3), 272-280, 2022 | 21 | 2022 |
| ClustENMD: efficient sampling of biomolecular conformational space at atomic resolution BT Kaynak, S Zhang, I Bahar, P Doruker Bioinformatics 37 (21), 3956-3958, 2021 | 19 | 2021 |
| RESPEC incorporates residue specificity and the ligand effect into the elastic network model BT Kaynak, D Findik, P Doruker The Journal of Physical Chemistry B 122 (21), 5347-5355, 2017 | 17 | 2017 |
| MULTI-BLACK HOLES SOLUTION WITH COSMIC STRINGS BT ÖZDEMIR, F. and ÖZDEMIR, N. and KAYNAK International Journal of Modern Physics A 19 (10), 1549, 2004 | 17 | 2004 |
| Predicting allosteric pockets in protein biological assemblages A Kumar, BT Kaynak, KS Dorman, P Doruker, RL Jernigan Bioinformatics 39 (5), btad275, 2023 | 12 | 2023 |
| The relativistic Lee model on Riemannian manifolds BT Kaynak, OT Turgut Journal of Physics A: Mathematical and Theoretical 42 (22), 225402, 2009 | 11 | 2009 |
| Cooperative mechanics of PR65 scaffold underlies the allosteric regulation of the phosphatase PP2A BT Kaynak, ZL Dahmani, P Doruker, A Banerjee, SH Yang, R Gordon, ... Structure 31 (5), 607-618. e3, 2023 | 10 | 2023 |
| Singular interactions supported by embedded curves BT Kaynak, OT Turgut Journal of Physics A: Mathematical and Theoretical 45 (26), 265202, 2012 | 10 | 2012 |
| Protein–ligand complexes as constrained dynamical systems BT Kaynak, P Doruker Journal of Chemical Information and Modeling 59 (5), 2352-2358, 2019 | 9 | 2019 |
| Symbol calculus and zeta-function regularized determinants BT Kaynak, OT Turgut Journal of mathematical physics 48 (11), 2007 | 9 | 2007 |
| Compact submanifolds supporting singular interactions BT Kaynak, OT Turgut Annals of Physics 339, 266-292, 2013 | 5 | 2013 |
| Noncommutative phase and unitarization of GLp,q(2) M Arik, BT Kaynak Journal of Mathematical Physics 44 (4), 1730, 2003 | 5 | 2003 |
| A Klein–Gordon particle captured by embedded curves BT Kaynak, OT Turgut Annals of Physics 327 (11), 2605-2616, 2012 | 4 | 2012 |